Selecting SRM Targets Part 7

WE HAVE OUR TARGETS.

After looking at my work from yesterday, Steven suggested that I hit 150 transitions and max out our capacity. However, I’ve already pored over both the short and long protein lists. He offered to help me search for proteins in the full Skyline output. I merged my full Skyline output with annotations to get this list. I evaluated the following proteins that Steven identified as interesting:

Most of the peaks had interference or missing data, but there were a handful I added to my protein list. Just to recap, here’s what I was looking for.

Figures 1-2. A noisy transition in Figure 1 (highlighted in red) that when deleted, produces a much better looking peak in Figure 2.

Figure 3. A peak showing slight interference. I avoided this when possible. When interference was more extreme, I deleted the peptide.